GgaINT0024812 @ galGal3
Intron Retention
Gene
ENSGALG00000002198 | FHOD1
Description
NA
Coordinates
chr11:1328385-1328605:+
Coord C1 exon
chr11:1328385-1328456
Coord A exon
chr11:1328457-1328557
Coord C2 exon
chr11:1328558-1328605
Length
101 bp
Sequences
Splice sites
5' ss Seq
CATGCAAGA
5' ss Score
-2.17
3' ss Seq
TAACCCCTGTTTTCCCTCAGGCG
3' ss Score
9.54
Exon sequences
Seq C1 exon
CCTGCAGCATCCTGGTGGCAGGTCGGGTGGTACTGGTGACAAGGACAGTGCTCCCAGCGTCACCAACACCAT
Seq A exon
GCAAGAGCAGTTCTTGCTGGGGAGCCCTATGCCGTGCCATGGGGCTGGGGGTGGGGGCAAGAGATCTCCATTAGCAGGGGCTAACCCCTGTTTTCCCTCAG
Seq C2 exon
GCGGGAGGATGCCCCCTCCTTGCATGGGGACAAACCTATTCTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002198:ENSGALT00000003437:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.824
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCAGCATCCTGGTGGC
R:
CAGAATAGGTTTGTCCCCATGCA
Band lengths:
114-215
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]